Table 1. 16S rRNA gene sequencing data from the Human Microbiome Project used to assess microbial co-occurrence relationships in the human microbiome.

		Houston			St. Louis
Body Area/Site	Total	Total	Female	Male	Total	Female	Male
Oral	3022	2038	840	1198	984	456	528
Buccal mucosa	340	228	92	136	112	53	59
Hard palate	334	221	90	131	113	53	60
Keratinized gingival	337	226	95	131	111	51	60
Palatine Tonsils	340	225	92	133	115	54	61
Saliva	309	227	94	133	82	35	47
Subgingival plaque	341	228	92	136	113	53	60
Supragingival plaque	349	232	97	135	117	55	62
Throat	321	219	92	127	102	46	56
Tongue dorsum	351	232	96	136	119	56	63
Gut	351	228	94	134	123	58	65
Stool	351	228	94	134	123	58	65
Airways	282	190	82	108	92	37	55
Anterior nares	282	190	82	108	92	37	55
Skin	921	554	233	321	367	159	208
Left Antecubital fossa	158	85	37	48	73	25	48
Right Antecubital fossa	160	83	33	50	77	34	43
Left Retroauricular crease	303	198	87	111	105	50	55
Right Retroauricular crease	300	188	76	112	112	50	62
Urogenital	450	286	286	0	164	164	0
Mid vagina	149	93	93	0	56	56	0
Posterior fornix	150	95	95	0	55	55	0
Vaginal introitus	151	98	98	0	53	53	0
Total	5026	3296	2230	2324	1730	1292	1184

We considered microbial associations in a total of 5,026 samples from the Human Microbiome Project (HMP) comprising 18 body sites in 239 individuals recruited at two clinical centers (Baylor College of Medicine, Houston, TX and Washington University at St. Louis, MO), which in total contained 726 reliably detectable bacterial phylotypes. For details of HMP samples and data processing, see [29].